genome.fa.s6.2.7.7.80.10.50.1000.21.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Dt_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  42799318

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   

This is table  21  of  141  ( 16820 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6436243--6436468	45	5.1	44	64	12	111	28	24	23	23	2.00
6436187--6436473	89	3.2	88	83	3	335	28	23	23	24	2.00
6436467--6436841	130	2.8	133	83	6	469	30	18	24	25	1.98
6440858--6440949	37	2.4	36	79	15	98	53	4	2	40	1.33
6442536--6442576	17	2.4	17	95	0	73	24	34	21	19	1.97
6442824--6442875	20	2.6	20	84	0	77	21	25	0	53	1.45
6459976--6460010	15	2.3	15	95	0	61	40	11	14	34	1.82
6461829--6461859	16	1.9	16	93	0	53	77	6	6	9	1.12
6463626--6463730	50	2.1	50	89	3	158	25	23	31	19	1.98
6463635--6463811	50	3.6	49	76	6	135	29	23	25	21	1.99
6464021--6464069	20	2.5	20	81	15	66	57	6	24	12	1.58
6470693--6470760	34	2.0	34	97	0	127	36	8	19	35	1.83
6471178--6471223	22	2.0	22	87	4	65	47	0	10	41	1.38
6472816--6472964	74	2.0	75	90	3	239	53	2	22	21	1.59
6474419--6474596	27	6.6	27	83	3	205	26	15	28	29	1.96
6474420--6474575	82	1.9	81	88	3	233	26	15	28	29	1.96
6474416--6474596	82	2.2	81	83	2	229	27	15	27	29	1.96
6479200--6479271	24	3.0	24	76	10	58	37	19	23	19	1.94
6479312--6479374	26	2.4	27	79	7	69	36	17	25	20	1.94
6483833--6484010	27	6.6	27	84	3	205	29	28	15	26	1.96
6483854--6484009	82	1.9	81	88	3	233	29	28	15	26	1.96
6491896--6492073	27	6.6	27	84	3	205	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6491917--6492072	82	1.9	81	88	3	233	29	28	15	26	1.96
6496778--6496822	24	1.9	23	81	4	54	35	13	4	46	1.63
6499277--6499323	23	2.1	23	84	7	62	51	12	4	31	1.59
6504663--6504730	15	4.8	14	84	12	86	20	8	2	67	1.31
6504662--6504728	30	2.3	30	90	10	104	19	7	2	70	1.25
6504768--6504816	12	4.2	12	94	5	82	22	0	8	69	1.14
6504771--6504816	23	2.0	23	95	0	83	19	0	8	71	1.11
6505806--6505852	23	2.1	23	84	7	62	51	12	4	31	1.59
6506700--6506739	21	1.9	21	84	0	53	42	20	2	35	1.65
6507982--6508047	18	3.6	18	89	2	96	42	7	22	27	1.80
6509498--6509596	27	3.6	27	83	5	128	26	24	16	33	1.96
6510725--6510781	28	2.0	28	100	0	114	49	10	17	22	1.77
6520606--6520791	40	4.7	40	89	2	241	25	27	22	24	2.00
6528546--6528728	79	2.3	81	83	7	223	24	27	22	24	2.00
6528525--6528728	40	5.1	40	81	8	229	24	27	22	25	2.00
6537077--6537186	40	2.8	40	81	4	134	38	15	24	21	1.92
6540994--6541039	18	2.6	18	100	0	92	32	0	45	21	1.52
6543437--6543475	20	2.0	20	94	0	69	48	0	2	48	1.15
6543573--6543612	20	2.0	20	100	0	80	45	15	10	30	1.78
6544207--6544278	24	3.0	24	91	0	117	26	25	20	27	1.99
6549164--6549210	21	2.2	21	77	7	51	17	6	4	72	1.22
6554187--6554248	22	2.6	25	72	25	62	45	8	17	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6565473--6565510	19	2.0	19	85	10	51	21	42	0	36	1.53
6567784--6568069	50	5.7	50	79	6	296	21	27	22	28	1.99
6567833--6568069	100	2.4	100	93	1	404	21	27	22	28	1.99
6567784--6568062	150	1.9	149	83	3	364	21	27	21	29	1.99
6574413--6574586	50	3.5	50	85	0	249	21	27	24	27	1.99
6579625--6579680	18	3.1	18	92	0	94	19	21	48	10	1.79
6581342--6581739	132	3.0	132	96	0	724	29	21	20	29	1.98
6584069--6584144	9	8.4	9	82	0	98	39	25	11	23	1.89
6584061--6584144	18	4.7	18	93	0	123	39	26	10	23	1.87
6584060--6584144	27	3.1	27	82	0	98	40	25	10	23	1.87
6599316--6599369	27	2.0	27	88	0	81	14	7	16	61	1.55
6613542--6613614	27	2.7	27	93	0	128	32	24	16	26	1.96
6616002--6616043	12	3.5	12	76	23	52	33	0	45	21	1.52
6616658--6616915	27	9.6	27	81	1	286	41	23	18	16	1.90
6616658--6616930	134	2.0	135	84	4	356	41	22	19	17	1.90
6631939--6631964	5	5.2	5	100	0	52	61	38	0	0	0.96
6638205--6638291	38	2.3	39	85	2	113	51	9	3	35	1.51
6639574--6639598	13	1.9	13	100	0	50	32	20	16	32	1.94
6640145--6640322	27	6.6	27	83	3	205	26	15	28	29	1.96
6640146--6640301	82	1.9	81	88	3	233	26	15	28	29	1.96
6640142--6640322	82	2.2	81	83	2	229	27	15	27	29	1.96
6640227--6640333	27	3.9	27	85	1	70	26	14	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6654534--6654712	27	6.6	27	79	8	166	26	14	29	30	1.95
6654531--6654712	82	2.2	81	83	3	240	26	14	28	30	1.95
6655336--6655545	106	2.0	106	99	0	413	30	17	26	25	1.97
6655917--6656116	100	2.0	100	98	0	382	40	16	18	25	1.90
6660641--6660741	50	2.0	50	98	0	193	30	14	29	24	1.95
6661688--6661730	20	2.2	20	86	0	59	48	9	13	27	1.73
6670608--6670800	48	4.0	49	77	10	168	23	27	21	27	1.99
6677928--6678067	48	2.9	48	82	3	156	22	30	22	25	1.99
6678101--6678191	48	1.9	47	90	2	146	21	30	23	24	1.99
6677945--6678193	124	2.0	124	100	0	498	23	29	20	26	1.98
6690524--6690565	21	2.0	20	86	13	59	21	47	9	21	1.79
6690674--6690708	17	2.0	18	88	5	54	28	5	2	62	1.32
6701427--6701479	18	2.9	18	80	11	63	58	3	0	37	1.16
6701578--6701619	17	2.5	16	85	11	57	19	4	0	76	0.96
6704985--6705065	22	3.5	22	66	21	56	43	22	4	29	1.74
6704992--6705068	23	3.2	23	67	16	66	37	23	5	33	1.77
6704973--6705071	49	2.0	49	94	0	171	40	24	6	29	1.79
6705113--6705140	13	2.2	13	100	0	56	28	7	32	32	1.84
6706759--6706792	17	2.0	17	94	0	59	32	17	5	44	1.73
6706867--6706900	17	2.0	17	94	0	59	32	17	5	44	1.73
6706735--6706949	108	2.0	108	99	0	421	29	18	15	36	1.92
6707868--6707896	14	2.1	14	100	0	58	37	6	0	55	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6711829--6711861	11	3.0	11	83	16	50	72	9	3	15	1.21
6714066--6714123	29	2.0	30	83	10	75	63	3	22	10	1.40
6717155--6717192	18	2.1	18	90	0	58	15	44	5	34	1.69
6717158--6717199	18	2.3	18	83	0	57	21	47	2	28	1.63
6717902--6717978	12	6.4	12	81	11	77	58	7	1	32	1.35
6717929--6717975	3	15.7	3	100	0	94	65	0	0	34	0.93
6718829--6718880	1	52.0	1	80	0	59	1	1	5	90	0.59
6718829--6718880	18	2.9	18	94	0	86	1	1	5	90	0.59
6718880--6718947	27	2.6	27	88	2	102	47	0	8	44	1.34
6720088--6720117	15	1.9	16	93	6	53	43	0	0	56	0.99
6720286--6720337	27	2.0	26	81	11	61	55	7	3	32	1.46
6724681--6724733	25	2.2	24	78	18	58	41	1	5	50	1.36
6728890--6728945	28	2.0	28	86	6	78	53	10	7	28	1.62
6733821--6733850	15	2.1	15	93	6	53	6	16	0	76	0.99
6742022--6742096	22	3.4	22	79	3	80	29	13	22	34	1.92
6748798--6749477	340	2.0	340	100	0	1360	31	17	23	27	1.97
6765984--6766015	15	2.1	15	94	0	55	31	0	6	62	1.20
6768040--6768126	26	3.3	26	81	0	111	28	25	17	28	1.97
6773848--6773886	20	2.0	20	94	0	69	10	23	25	41	1.86
6774854--6774905	20	2.5	20	84	6	59	28	9	15	46	1.77
6774868--6774918	20	2.5	20	93	3	84	21	9	17	50	1.74
6779054--6779096	20	2.2	20	86	0	59	41	23	25	9	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6780405--6780524	25	4.8	25	87	0	177	28	14	24	33	1.94
6782500--6782654	41	3.8	40	89	1	229	34	15	30	18	1.92
6782506--6782566	20	3.0	20	65	13	52	36	14	29	19	1.92
6782506--6782648	21	7.0	20	64	16	78	34	14	31	18	1.92
6782497--6782654	82	1.9	82	90	2	255	34	15	30	18	1.93
6789516--6789874	27	13.3	27	77	4	319	42	21	18	17	1.89
6790049--6790116	26	2.6	26	81	4	84	17	25	26	30	1.97
6802000--6802052	16	3.2	16	94	5	97	24	0	37	37	1.56
6802288--6802322	18	2.0	17	88	5	52	54	0	0	45	0.99
6802175--6802491	157	2.0	157	95	0	571	44	3	5	47	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141